How much power does /application have over /concrete?

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Does the /application override work with *any* file? Specifically, would
/application/src/Cookies/CookieJar.php override
/Concrete/src/Cookies/CookieJar.php?

My organization has a thing about persistent cookies -- even when set to "0", they don't want to see "EXPIRE =" in the code.

yfsneals
 
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Gondwana